Updated: Tue Nov 4 17:59:00 2014
| Sample | Total.DMR | Hyper.DMR | Hypo.DMR |
|---|---|---|---|
| Cortex-HuFNSC02_GE-HuFNSC02 | 2178 | 420 | 1758 |
| Cortex-HuFNSC04_GE-HuFNSC04 | 646 | 91 | 555 |
| proximal.UMRs | unique.genes | DE.DMRs | unique.DE.genes | same.direction | |
|---|---|---|---|---|---|
| GE_UMRs-HuFNSC02 | 17 | 17 | 4 | 4 | 1 |
| Cortex_UMRs-HuFNSC02 | 53 | 52 | 15 | 14 | 8 |
| GE_UMRs-HuFNSC04 | 9 | 11 | 3 | 3 | 2 |
| Cortex_UMRs-HuFNSC04 | 82 | 84 | 10 | 9 | 3 |
| name | description | DE |
|---|---|---|
| CD58 | CD58_molecule | UP |
| RGS10 | regulator_of_G-protein_signaling_10 | UP |
| ADM | adrenomedullin | UP |
| NKX2-1 | NK2_homeobox_1 | DN |
| OTX2 | orthodenticle_homeobox_2 | DN |
| USP43 | ubiquitin_specific_peptidase_43 | DN |
| GFAP | glial_fibrillary_acidic_protein | UP |
| NFIX | nuclear_factor_I/X_(CCAAT-binding_transcription_factor) | UP |
| GAD1 | glutamate_decarboxylase_1_(brain,_67kDa) | DN |
| FZD7 | frizzled_family_receptor_7 | UP |
| FZD5 | frizzled_family_receptor_5 | DN |
| CXCR7 | chemokine_(C-X-C_motif)receptor7 | DN |
| ZAR1 | zygote_arrest_1 | UP |
| FEZF1 | FEZ_family_zinc_finger_1 | DN |
| name | description | DE |
|---|---|---|
| FAM5C | family_with_sequence_similarity_5,memberC | UP |
| STXBP6 | syntaxin_binding_protein_6_(amisyn) | DN |
| GFAP | glial_fibrillary_acidic_protein | UP |
| NFIX | nuclear_factor_I/X_(CCAAT-binding_transcription_factor) | UP |
| MEIS1 | Meis_homeobox_1 | DN |
| FSIP2 | fibrous_sheath_interacting_protein_2 | DN |
| INSM1 | insulinoma-associated_1 | DN |
| FEZF1 | FEZ_family_zinc_finger_1 | DN |
| C9orf172 | chromosome_9_open_reading_frame_172 | DN |
| name | description | DE |
|---|---|---|
| PAX6 | paired_box_6 | UP |
| TMEM132B | transmembrane_protein_132B | UP |
| PID1 | phosphotyrosine_interaction_domain_containing_1 | DN |
| ZIC3 | Zic_family_member_3 | UP |
| name | description | DE |
|---|---|---|
| MN1 | meningioma_(disrupted_in_balanced_translocation)_1 | DN |
| PNCK | pregnancy_up-regulated_non-ubiquitously_expressed_CaM_kinase | UP |
| TF | Cortex02UMR | GE02UMR | Ratio02 | Cortex04UMR | GE04UMR | Ratio04 |
|---|---|---|---|---|---|---|
| TAF7 | 12 | 4 | 3.00 | 10 | 1 | 10.00 |
| TFAP2A | 30 | 10 | 3.00 | 20 | 3 | 6.67 |
| USF1 | 67 | 21 | 3.19 | 31 | 6 | 5.17 |
| ELF1 | 45 | 14 | 3.21 | 39 | 5 | 7.80 |
| GATA2 | 116 | 36 | 3.22 | 43 | 4 | 10.75 |
| ESR1 | 55 | 17 | 3.24 | 9 | 3 | 3.00 |
| CTCF | 197 | 56 | 3.52 | 105 | 16 | 6.56 |
| TFAP2C | 32 | 9 | 3.56 | 23 | 5 | 4.60 |
| MYC | 133 | 36 | 3.69 | 84 | 5 | 16.80 |
| FOXA1 | 89 | 24 | 3.71 | 26 | 5 | 5.20 |
| TCF7L2 | 82 | 22 | 3.73 | 47 | 4 | 11.75 |
| ZNF263 | 31 | 8 | 3.88 | 23 | 5 | 4.60 |
| E2F1 | 35 | 9 | 3.89 | 38 | 5 | 7.60 |
| TAL1 | 16 | 4 | 4.00 | 5 | 1 | 5.00 |
| GATA3 | 63 | 8 | 7.88 | 18 | 1 | 18.00 |
| UP | DN | DE | |
|---|---|---|---|
| HuFNSC01 | 403 | 508 | 911 |
| HuFNSC02 | 588 | 640 | 1228 |
| HuFNSC03 | 447 | 227 | 674 |
| HuFNSC04 | 378 | 249 | 627 |
| DE | name | description |
|---|---|---|
| UP | SLC1A6 | solute_carrier_family_1_(high_affinity_aspartate/glutamate_transporter),member6 |
| UP | PCDH20 | protocadherin_20 |
| UP | C9orf64 | chromosome_9_open_reading_frame_64 |
| UP | GFAP | glial_fibrillary_acidic_protein |
| UP | ZIC5 | Zic_family_member_5 |
| UP | NEFM | neurofilament,mediumpolypeptide |
| UP | QPCT | glutaminyl-peptide_cyclotransferase |
| UP | UNC5C | unc-5_homolog_C_(C._elegans) |
| UP | ZIC2 | Zic_family_member_2 |
| UP | XKR8 | XK,Kellblood_group_complex_subunit-related_family,member8 |
| UP | PYGL | phosphorylase,glycogen,liver |
| UP | SERINC2 | serine_incorporator_2 |
| UP | KIAA1239 | KIAA1239 |
| UP | B3GALT1 | UDP-Gal:betaGlcNAc_beta_1,3-galactosyltransferase,polypeptide1 |
| UP | CCDC48 | coiled-coil_domain_containing_48 |
| UP | NOS1AP | nitric_oxide_synthase_1_(neuronal)adaptorprotein |
| UP | ADAM19 | ADAM_metallopeptidase_domain_19 |
| UP | H1F0 | H1_histone_family,member0 |
| UP | ZIC3 | Zic_family_member_3 |
| UP | NT5E | 5’-nucleotidase,ecto(CD73) |
| UP | SYNM | synemin,intermediatefilament_protein |
| UP | C1orf226 | chromosome_1_open_reading_frame_226 |
| DE | name | description |
|---|---|---|
| DN | DPPA4 | developmental_pluripotency_associated_4 |
| DN | VAX1 | ventral_anterior_homeobox_1 |
| DN | SHISA6 | shisa_homolog_6_(Xenopus_laevis) |
| DN | NRXN3 | neurexin_3 |
| DN | FGFR2 | fibroblast_growth_factor_receptor_2 |
| DN | ST8SIA2 | ST8_alpha-N-acetyl-neuraminide_alpha-2,8-sialyltransferase_2 |
| DN | SLC32A1 | solute_carrier_family_32_(GABA_vesicular_transporter),member1 |
| DN | FEZF1 | FEZ_family_zinc_finger_1 |
| DN | AJAP1 | adherens_junctions_associated_protein_1 |
| DN | ZNF703 | zinc_finger_protein_703 |
| DN | VSIG10L | V-set_and_immunoglobulin_domain_containing_10_like |
| DN | SIX3 | SIX_homeobox_3 |
| DN | SORL1 | sortilin-related_receptor,L(DLRclass)Arepeats_containing |
| DN | LMO1 | LIM_domain_only_1_(rhombotin_1) |
| DN | ODZ1 | odz,oddOz/ten-m_homolog_1_(Drosophila) |
| DN | EPHA3 | EPH_receptor_A3 |
| DN | TIMP3 | TIMP_metallopeptidase_inhibitor_3 |
| DN | CAMK2N1 | calcium/calmodulin-dependent_protein_kinase_II_inhibitor_1 |
| DN | EEF1A2 | eukaryotic_translation_elongation_factor_1_alpha_2 |
| DN | OTX2 | orthodenticle_homeobox_2 |
| DN | CHL1 | cell_adhesion_molecule_with_homology_to_L1CAM_(close_homolog_of_L1) |
| DN | PCSK1N | proprotein_convertase_subtilisin/kexin_type_1_inhibitor |
| DN | LMO2 | LIM_domain_only_2_(rhombotin-like_1) |
| DN | ASTN1 | astrotactin_1 |
| DN | BASP1 | brain_abundant,membraneattached_signal_protein_1 |
| DN | ADCYAP1R1 | adenylate_cyclase_activating_polypeptide_1_(pituitary)receptortype_I |
| DE_genes | DE_exons | with_expressed_genes | isoform_exons | exclude_DE_genes | isoform_genes | |
|---|---|---|---|---|---|---|
| cortex01_GE01_summary | 911 | 32372 | 18968 | 8440 | 7962 | 2447 |
| cortex02_GE02_summary | 1228 | 35196 | 21880 | 8163 | 7374 | 2298 |
| cortex03_GE03_summary | 674 | 29617 | 13746 | 6401 | 6022 | 2086 |
| cortex04_GE04_summary | 627 | 22386 | 11253 | 4323 | 4259 | 1386 |
| Sample | Total.DMR | Hyper.DMR | Hypo.DMR |
|---|---|---|---|
| Brain-HuFNSC01_Brain-HuFNSC02 | 4472 | 2750 | 1722 |
| Cortex-HuFNSC01_Cortex-HuFNSC02 | 3161 | 1758 | 1403 |
| GE-HuFNSC01_GE-HuFNSC02 | 2716 | 1136 | 1580 |
| DMRs | unique.genes | DE.DMRs | unique.DE.genes | same.direction | |
|---|---|---|---|---|---|
| Brain01_Brain02_hyper | 432 | 473 | 26 | 26 | 10 |
| Brain01_Brain02_hypo | 367 | 409 | 20 | 20 | 13 |
| Cortex01_Cortex02_hyper | 587 | 659 | 30 | 28 | 17 |
| Cortex01_Cortex02_hypo | 316 | 342 | 24 | 22 | 11 |
| GE01_GE02_hyper | 369 | 402 | 1 | 1 | 1 |
| GE01_GE02_hypo | 361 | 398 | 2 | 2 | 0 |
| CellType | name | description | DM | DE |
|---|---|---|---|---|
| Brain | SAMD11 | sterile_alpha_motif_domain_containing_11 | hypo | UP |
| Brain | ITGA8 | integrin,alpha8 | hypo | UP |
| Brain | EMX2 | empty_spiracles_homeobox_2 | hypo | DN |
| Brain | ARNTL2 | aryl_hydrocarbon_receptor_nuclear_translocator-like_2 | hypo | UP |
| Brain | CPNE8 | copine_VIII | hypo | DN |
| Brain | PCDH17 | protocadherin_17 | hypo | DN |
| Brain | Putative_3-phosphoinositide-dependent_protein_kinase_2 | hypo | UP | |
| Brain | CPNE7 | copine_VII | hypo | UP |
| Brain | PKDREJ | polycystic_kidney_disease_(polycystin)andREJ_homolog_(sperm_receptor_for_egg_jelly_homolog,seaurchin) | hypo | UP |
| Brain | THRB | thyroid_hormone_receptor,_beta | hypo | UP |
| Brain | SFRP2 | secreted_frizzled-related_protein_2 | hypo | DN |
| Brain | IER3 | immediate_early_response_3 | hypo | UP |
| Brain | ZBTB12 | zinc_finger_and_BTB_domain_containing_12 | hypo | UP |
| Brain | MDGA1 | MAM_domain_containing_glycosylphosphatidylinositol_anchor_1 | hypo | DN |
| Brain | EPHA1 | EPH_receptor_A1 | hypo | UP |
| Brain | Protein_kinase-like_protein_SgK196 | hypo | UP | |
| Brain | TOX | thymocyte_selection-associated_high_mobility_group_box | hypo | DN |
| Brain | NCOA2 | nuclear_receptor_coactivator_2 | hypo | UP |
| Brain | GPR64 | G_protein-coupled_receptor_64 | hypo | UP |
| Brain | TRPC5 | transient_receptor_potential_cation_channel,subfamilyC,member5 | hypo | DN |
| Cortex | ELTD1 | EGF,latrophilinand_seven_transmembrane_domain_containing_1 | hypo | UP |
| Cortex | CRABP2 | cellular_retinoic_acid_binding_protein_2 | hypo | DN |
| Cortex | SPOCK2 | sparc/osteonectin,cwcvand_kazal-like_domains_proteoglycan_(testican)_2 | hypo | DN |
| Cortex | VAX1 | ventral_anterior_homeobox_1 | hypo | UP |
| Cortex | LRRC10B | leucine_rich_repeat_containing_10B | hypo | DN |
| Cortex | NDUFA4L2 | NADH_dehydrogenase_(ubiquinone)1alpha_subcomplex,4-like2 | hypo | DN |
| Cortex | FOXO1 | forkhead_box_O1 | hypo | UP |
| Cortex | C16orf74 | chromosome_16_open_reading_frame_74 | hypo | DN |
| Cortex | WNT3 | wingless-type_MMTV_integration_site_family,member3 | hypo | DN |
| Cortex | CHST9 | carbohydrate_(N-acetylgalactosamine_4-0)sulfotransferase9 | hypo | UP |
| Cortex | CD97 | CD97_molecule | hypo | DN |
| Cortex | RNF144A | ring_finger_protein_144A | hypo | UP |
| Cortex | DLX1 | distal-less_homeobox_1 | hypo | UP |
| Cortex | OLIG1 | oligodendrocyte_transcription_factor_1 | hypo | UP |
| Cortex | SCUBE1 | signal_peptide,CUBdomain,EGF-like1 | hypo | DN |
| Cortex | GRIA1 | glutamate_receptor,ionotropic,AMPA_1 | hypo | DN |
| Cortex | MMD2 | monocyte_to_macrophage_differentiation-associated_2 | hypo | UP |
| Cortex | SEMA3E | sema_domain,immunoglobulindomain_(Ig),shortbasic_domain,secreted,(semaphorin)_3E | hypo | DN |
| Cortex | VIPR2 | vasoactive_intestinal_peptide_receptor_2 | hypo | DN |
| Cortex | AP1S2 | adaptor-related_protein_complex_1,sigma2_subunit | hypo | DN |
| Cortex | SH3KBP1 | SH3-domain_kinase_binding_protein_1 | hypo | UP |
| GE | FAM5B | family_with_sequence_similarity_5,memberB | hypo | DN |
| GE | DLL1 | delta-like_1_(Drosophila) | hypo | DN |
| CellType | name | description | DM | DE |
|---|---|---|---|---|
| Brain | EPHA8 | EPH_receptor_A8 | hyper | UP |
| Brain | IFI6 | interferon,alpha-inducibleprotein_6 | hyper | DN |
| Brain | BMP8A | bone_morphogenetic_protein_8a | hyper | UP |
| Brain | ALX3 | ALX_homeobox_3 | hyper | UP |
| Brain | NRGN | neurogranin_(protein_kinase_C_substrate,_RC3) | hyper | UP |
| Brain | C1QL4 | complement_component_1,qsubcomponent-like_4 | hyper | UP |
| Brain | CSRP2 | cysteine_and_glycine-rich_protein_2 | hyper | DN |
| Brain | TTYH2 | tweety_homolog_2_(Drosophila) | hyper | DN |
| Brain | DTNB | dystrobrevin,_beta | hyper | UP |
| Brain | CXCR7 | chemokine_(C-X-C_motif)receptor7 | hyper | UP |
| Brain | VHL | von_Hippel-Lindau_tumor_suppressor | hyper | UP |
| Brain | EPHA6 | EPH_receptor_A6 | hyper | UP |
| Brain | CAMK2N2 | calcium/calmodulin-dependent_protein_kinase_II_inhibitor_2 | hyper | UP |
| Brain | TBC1D1 | TBC1_(tre-2/USP6,BUB2,cdc16)domainfamily,member1 | hyper | DN |
| Brain | NMU | neuromedin_U | hyper | DN |
| Brain | FSTL5 | follistatin-like_5 | hyper | DN |
| Brain | CARTPT | CART_prepropeptide | hyper | DN |
| Brain | EDIL3 | EGF-like_repeats_and_discoidin_I-like_domains_3 | hyper | UP |
| Brain | CCDC90A | coiled-coil_domain_containing_90A | hyper | UP |
| Brain | LOC401296_proteinUncharacterized_protein | hyper | UP | |
| Brain | NPY | neuropeptide_Y | hyper | UP |
| Brain | SFRP1 | secreted_frizzled-related_protein_1 | hyper | DN |
| Brain | TOX | thymocyte_selection-associated_high_mobility_group_box | hyper | DN |
| Brain | ENTPD2 | ectonucleoside_triphosphate_diphosphohydrolase_2 | hyper | UP |
| Brain | KLHL4 | kelch-like_4_(Drosophila) | hyper | UP |
| Brain | SOX3 | SRY_(sex_determining_region_Y)-box_3 | hyper | DN |
| Cortex | DMRTA2 | DMRT-like_family_A2 | hyper | DN |
| Cortex | NPR1 | natriuretic_peptide_receptor_A/guanylate_cyclase_A_(atrionatriuretic_peptide_receptor_A) | hyper | UP |
| Cortex | PTPRE | protein_tyrosine_phosphatase,receptortype,_E | hyper | DN |
| Cortex | PDE3B | phosphodiesterase_3B,_cGMP-inhibited | hyper | UP |
| Cortex | LDHA | lactate_dehydrogenase_A | hyper | DN |
| Cortex | GNG3 | guanine_nucleotide_binding_protein_(G_protein),gamma3 | hyper | DN |
| Cortex | METTL7B | methyltransferase_like_7B | hyper | DN |
| Cortex | NME3 | non-metastatic_cells_3,proteinexpressed_in | hyper | DN |
| Cortex | GRIN2A | glutamate_receptor,ionotropic,N-methyl_D-aspartate_2A | hyper | UP |
| Cortex | NOL3 | nucleolar_protein_3_(apoptosis_repressor_with_CARD_domain) | hyper | DN |
| Cortex | NR1D1 | nuclear_receptor_subfamily_1,groupD,member1 | hyper | DN |
| Cortex | IGFBP4 | insulin-like_growth_factor_binding_protein_4 | hyper | UP |
| Cortex | TBX2 | T-box_2 | hyper | UP |
| Cortex | LBH | limb_bud_and_heart_development_homolog_(mouse) | hyper | DN |
| Cortex | INSIG2 | insulin_induced_gene_2 | hyper | DN |
| Cortex | WNT7A | wingless-type_MMTV_integration_site_family,member7A | hyper | DN |
| Cortex | SNCA | synuclein,alpha(non_A4_component_of_amyloid_precursor) | hyper | UP |
| Cortex | NPNT | nephronectin | hyper | DN |
| Cortex | SFRP2 | secreted_frizzled-related_protein_2 | hyper | UP |
| Cortex | PRR16 | proline_rich_16 | hyper | UP |
| Cortex | STC2 | stanniocalcin_2 | hyper | DN |
| Cortex | SNCB | synuclein,_beta | hyper | DN |
| Cortex | ITPR3 | inositol_1,4,5-trisphosphate_receptor,type3 | hyper | UP |
| Cortex | NPY | neuropeptide_Y | hyper | DN |
| Cortex | SEMA3D | sema_domain,immunoglobulindomain_(Ig),shortbasic_domain,secreted,(semaphorin)_3D | hyper | UP |
| Cortex | VGF | VGF_nerve_growth_factor_inducible | hyper | UP |
| Cortex | CAV1 | caveolin_1,caveolaeprotein,_22kDa | hyper | UP |
| Cortex | SHROOM2 | shroom_family_member_2 | hyper | UP |
| GE | DBC1 | deleted_in_bladder_cancer_1 | hyper | DN |
| TF | Brain.hypo | Brain.hyper | Ratio.Brain | Cortex.hypo | Cortex.hyper | Ratio.Cortex |
|---|---|---|---|---|---|---|
| ESRRA | 1 | 7 | 0.14 | 1 | 5 | 0.20 |
| TAL1 | 10 | 42 | 0.24 | 9 | 34 | 0.26 |
| HNF4A | 15 | 49 | 0.31 | 11 | 27 | 0.41 |
| HNF4G | 13 | 41 | 0.32 | 10 | 29 | 0.34 |
| ZNF217 | 6 | 17 | 0.35 | 6 | 14 | 0.43 |
| EBF1 | 49 | 130 | 0.38 | 48 | 98 | 0.49 |
| FOS | 47 | 123 | 0.38 | 43 | 118 | 0.36 |
| GATA1 | 31 | 73 | 0.42 | 32 | 80 | 0.40 |
| HSF1 | 3 | 7 | 0.43 | 2 | 6 | 0.33 |
| FOXA2 | 26 | 60 | 0.43 | 14 | 36 | 0.39 |
| GATA3 | 35 | 80 | 0.44 | 22 | 52 | 0.42 |
| GATA2 | 58 | 130 | 0.45 | 39 | 96 | 0.41 |
| STAT3 | 41 | 91 | 0.45 | 26 | 87 | 0.30 |
| CEBPD | 22 | 48 | 0.46 | 23 | 64 | 0.36 |
| SMC3 | 71 | 150 | 0.47 | 62 | 144 | 0.43 |
| NR3C1 | 46 | 95 | 0.48 | 39 | 90 | 0.43 |
| RXRA | 23 | 47 | 0.49 | 16 | 35 | 0.46 |
| HDAC6 | 1 | 2 | 0.50 | 2 | 11 | 0.18 |
| UP | DN | DE | |
|---|---|---|---|
| brain01_brain02 | 461 | 181 | 642 |
| cortex01_cortex02 | 248 | 348 | 596 |
| GE01_GE02 | 99 | 74 | 173 |
| name | description | Brain | Cortex | GE |
|---|---|---|---|---|
| LMO1 | LIM_domain_only_1_(rhombotin_1) | UP | DN | DN |
| CXCR7 | chemokine_(C-X-C_motif)receptor7 | UP | UP | DN |
| SPP1 | secreted_phosphoprotein_1 | UP | DN | DN |
| NPY | neuropeptide_Y | UP | DN | DN |
| COL2A1 | collagen,typeII,alpha1 | DN | UP | UP |
| BCL6 | B-cell_CLL/lymphoma_6 | DN | DN | DN |
| DE_genes | DE_exons | with_expressed_genes | isoform_exons | exclude_DE_genes | isoform_genes | |
|---|---|---|---|---|---|---|
| brain01_brain02_summary | 642 | 32138 | 16302 | 8980 | 8542 | 2902 |
| cortex01_cortex02_summary | 596 | 26983 | 15554 | 7618 | 7445 | 2454 |
| GE01_GE02_summary | 173 | 23810 | 12862 | 7402 | 7351 | 2495 |
| cortex03_cortex04_summary | 642 | 26826 | 12185 | 5818 | 5479 | 1994 |
| GE03_GE04_summary | 545 | 24752 | 12223 | 4582 | 4422 | 1454 |